ctrl+shift+p filters: :st2 :st3 :win :osx :linux
Browse

nextflow

by peterk87 ST3

Nextflow workflow syntax highlighting and snippets for Sublime Text 3

Labels language syntax, snippets, completions

Details

Installs

  • Total 0
  • Win 0
  • Mac 0
  • Linux 0
Jan 21 Jan 20 Jan 19 Jan 18 Jan 17 Jan 16 Jan 15 Jan 14 Jan 13 Jan 12 Jan 11 Jan 10 Jan 9 Jan 8 Jan 7 Jan 6 Jan 5 Jan 4 Jan 3 Jan 2 Jan 1 Dec 31 Dec 30 Dec 29 Dec 28 Dec 27 Dec 26 Dec 25 Dec 24 Dec 23 Dec 22 Dec 21 Dec 20 Dec 19 Dec 18 Dec 17 Dec 16 Dec 15 Dec 14 Dec 13 Dec 12 Dec 11 Dec 10 Dec 9 Dec 8
Windows 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Mac 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
Linux 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0

Readme

Source
raw.​githubusercontent.​com

sublime-nextflow: Nextflow workflow syntax highlighting and snippets for Sublime Text 3

[Insert pretty screenshot here]()

Nextflow Syntax Highlighting

Nextflow syntax highlighting extends Sublime Text 3's Groovy syntax with highlighting of:

  • processes
    • input/output/script tags
  • channel highlighting based on matching ch_*
  • some invalid syntax checks (into channel in input tag and from channel in output tag)
  • highlighting special Nextflow functions and variables (workflow, params, task, etc)

Nextflow Snippets

  • proc: process snippet
  • tag: tag directive snippet
  • pub: publishDir directive snippet
  • init: initialize a Nextflow workflow (shebang, some initial params and a help message)
  • illumina: Illumina paired-end reads file pairs channel
  • par: Create a new params parameter (params.<param_name> = <default>)
  • cpus: insert “${task.cpus}” into a script
  • script_path: specify user script (e.g. Python script) to use from scripts/ directory in workflow base directory
  • info: log.info snippet
  • done: on workflow complete or error message